Group 01 project: Analysis of Gene Expression in Parkinsson Disease

Introduction

Gene expression data (Affymetrix platform).

Collected from the blood of: - 20 healthy patients - 40 patients diagnosed with sporadic Parkinsons disease

Methods

• Cleaning of dataset
• Statistical Analyses:
• • PCA
• • Differential Expression
• • Differential Expression of known biomarker gene

Results - PCA

Results - Diff. Expression

Results - Diff. Expression of known biomarkers

Kegg enrichment

Kegg pathway

Conclusion

• No clustering / Separtion along the PC’s
• No significant differentially expressed genes
• What to do next?
  • With patient metadata, clustering might present itself
  • Non-linear tendencies. Performing UMAP or t-SNE could provide clustering
  • ANN, KNN logistic modelling could reveal expression patterns
  • Redo the experiment
  • Perhaps blood transcriptomics on PD patient, isn’t the way to go, though biomarker discovery would be ideal.